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Calcium in PDB 1yxh: Crystal Structure of A Novel Phospholipase A2 From Naja Naja Sagittifera with A Strong Anticoagulant Activity

Enzymatic activity of Crystal Structure of A Novel Phospholipase A2 From Naja Naja Sagittifera with A Strong Anticoagulant Activity

All present enzymatic activity of Crystal Structure of A Novel Phospholipase A2 From Naja Naja Sagittifera with A Strong Anticoagulant Activity:
3.1.1.4;

Protein crystallography data

The structure of Crystal Structure of A Novel Phospholipase A2 From Naja Naja Sagittifera with A Strong Anticoagulant Activity, PDB code: 1yxh was solved by T.Jabeen, N.Singh, R.K.Singh, S.Sharma, A.Srinivasan, T.P.Singh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.86
Space group P 41
Cell size a, b, c (Å), α, β, γ (°) 42.817, 42.817, 65.994, 90.00, 90.00, 90.00
R / Rfree (%) 19.5 / 22.5

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of A Novel Phospholipase A2 From Naja Naja Sagittifera with A Strong Anticoagulant Activity (pdb code 1yxh). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Crystal Structure of A Novel Phospholipase A2 From Naja Naja Sagittifera with A Strong Anticoagulant Activity, PDB code: 1yxh:

Calcium binding site 1 out of 1 in 1yxh

Go back to Calcium Binding Sites List in 1yxh
Calcium binding site 1 out of 1 in the Crystal Structure of A Novel Phospholipase A2 From Naja Naja Sagittifera with A Strong Anticoagulant Activity


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of A Novel Phospholipase A2 From Naja Naja Sagittifera with A Strong Anticoagulant Activity within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1001

b:8.3
occ:1.00
 OD2 A:ASP49 2.4 23.8 1.0
O A:HOH3050 2.4 38.6 1.0
O A:TYR28 2.4 22.7 1.0
O A:GLY32 2.4 33.2 1.0
O A:GLY30 2.6 30.0 1.0
O A:EOH2002 2.6 47.6 1.0
OD1 A:ASP49 2.7 21.8 1.0
CG A:ASP49 3.0 20.1 1.0
C A:TYR28 3.5 22.6 1.0
C A:GLY32 3.6 33.2 1.0
C A:GLY30 3.7 29.9 1.0
N A:GLY30 3.9 26.5 1.0
C1 A:EOH2002 3.9 47.5 1.0
CA A:TYR28 4.0 22.3 1.0
O A:HOH3052 4.3 38.9 1.0
CA A:GLY30 4.3 28.5 1.0
N A:GLY32 4.3 33.2 1.0
O A:HOH3083 4.3 60.3 1.0
C A:ARG31 4.4 32.8 1.0
CB A:ASP49 4.5 17.7 1.0
CA A:GLY32 4.5 33.2 1.0
N A:GLY33 4.5 33.1 1.0
CB A:TYR28 4.6 22.3 1.0
N A:CYS29 4.6 23.1 1.0
CA A:GLY33 4.6 33.0 1.0
O A:ARG31 4.6 33.4 1.0
O A:HOH3016 4.6 53.1 1.0
C A:CYS29 4.7 25.1 1.0
N A:ARG31 4.7 31.1 1.0
CA A:CYS29 4.9 23.8 1.0
CD1 A:TYR28 4.9 23.0 1.0
CA A:ARG31 4.9 32.5 1.0

Reference:

T.Jabeen, N.Singh, R.K.Singh, A.S.Ethayathulla, S.Sharma, A.Srinivasan, T.P.Singh. Crystal Structure of A Novel Phospholipase A(2) From Naja Naja Sagittifera with A Strong Anticoagulant Activity Toxicon V. 46 865 2005.
ISSN: ISSN 0041-0101
PubMed: 16269164
DOI: 10.1016/J.TOXICON.2005.08.008
Page generated: Tue Jul 8 03:59:16 2025

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